About: Study of the Binding Pattern of HLA Class I Alleles of Indian Frequency and cTAP Binding Peptide for Chikungunya Vaccine Development

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About: Study of the Binding Pattern of HLA Class I Alleles of Indian Frequency and cTAP Binding Peptide for Chikungunya Vaccine Development Goto Sponge NotDistinct Permalink

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Study of the Binding Pattern of HLA Class I Alleles of Indian Frequency and cTAP Binding Peptide for Chikungunya Vaccine Development
Creator	Mishra, Sanjay Saxena, Prashant
Source	PMC
abstract	Chikungunya is a mosquito-borne disease, caused by the member of the Togaviridae family belongs to the genus alphavirus, making it a major threat in all developing countries as well as some developed countries. The mosquito acts as a vector for the disease and carries the CHIK-Virus. To date there is no direct treatment available and that demands the development of more effective vaccines. In this study author employed Immune Epitope Database and Analysis Resource, a machine learning-based algorithm principally working on the Artificial Neural Network (ANN) algorithm, also known as (IEDB-ANN) for the prediction and analysis of Epitopes. A total of 173 epitopes were identified on the basis of IC50 values, among them 40 epitopes were found, sharing part with the linear B-cell epitopes and exposed to the cTAP1protein, and out of 40, 6 epitopes were noticed to show interactions with the cTAP with their binding energy ranging from − 3.61 to − 1.22 kcal/mol. The six epitopes identified were exposed to the HLA class I alleles and from this all revealed interaction with the HLA alleles and minimum binding energy that ranges from − 4.12 to − 5.88 kcal/mol. Besides, two T cell epitopes i.e. (145)KVFTGVYPE(153) and (395)STVPVAPPR(403) were found most promiscuous candidates. These promiscuous epitopes-HLA complexes were further analyzed by the molecular dynamics simulation to check the stability of the complex. Results obtained from this study suggest that the identified epitopes i.e. and (395)STVPVAPPR(403), are likely to be capable of passing through the lumen of ER to bind withthe HLA class I allele and provide new insights and potential application in the designing and development of peptide-based vaccine candidate for the treatment of chikungunya.
has issue date	2020-02-03(xsd:dateTime)
bibo:doi	10.1007/s10989-020-10038-2
bibo:pmid	32421074
has license	no-cc
sha1sum (hex)	eb857510ea5f5fe08939367ae2da82aaf2ba92bb
schema:url	https://doi.org/10.1007/s10989-020-10038-2
resource representing a document's title	Study of the Binding Pattern of HLA Class I Alleles of Indian Frequency and cTAP Binding Peptide for Chikungunya Vaccine Development
has PubMed Central identifier	PMC7223317
has PubMed identifier	32421074
schema:publication	Int J Pept Res Ther
resource representing a document's body	covid:eb857510ea5f5fe08939367ae2da82aaf2ba92bb#body_text
is schema:about of	named entity 'sharing' named entity 'vaccines' named entity 'ranges' named entity 'algorithm' named entity 'Chikungunya' named entity 'Alleles' named entity 'Binding' named entity 'OBTAINED' named entity 'HLA CLASS I' named entity 'CARRIES' named entity 'BIND' named entity 'CAPABLE' named entity 'INTERACTIONS' named entity 'ARTIFICIAL NEURAL NETWORK' named entity 'CTAP' named entity 'DATABASE' named entity 'EXPOSED TO' named entity 'ALPHAVIRUS' named entity 'ACTS' named entity 'RESOURCE' named entity 'PROVIDE' named entity 'BINDING ENERGY' named entity 'RESULTS' named entity 'EPITOPES' named entity 'MOSQUITO' named entity 'VACCINE CANDIDATE' named entity 'study' named entity 'genus' named entity 'alphavirus' named entity 'employed' named entity 'values' named entity 'Results' named entity 'binding energy' named entity 'ANN' named entity 'acts' named entity 'Artificial Neural Network' named entity 'Database' named entity 'alleles' named entity 'revealed' named entity 'IC50' named entity 'ANN' named entity 'Artificial Neural Network' named entity 'epitopes' named entity 'developing countries' named entity 'Epitopes' named entity 'molecular dynamics' named entity 'lumen' named entity 'algorithm' named entity 'binding energy' named entity 'Chikungunya' named entity 'HLA' named entity 'inhibition constant' named entity 'sequence database' named entity 'fever' named entity 'HLA-A' named entity 'epitopes' named entity 'chikungunya' named entity 'RMSD' named entity 'antibody' named entity 'immunoinformatics' named entity 'force field' named entity 'vaccines' named entity 'Dengue' named entity 'RMSD' named entity 'vaccine' named entity 'NCBI' named entity 'chikungunya' named entity 'binding activity' named entity 'alleles' named entity 'HLA' named entity 'chikungunya' named entity 'nsp3' named entity 'Binding energy' named entity 'CHARMM' named entity 'epitopes' named entity 'joint pains' named entity 'alleles' named entity 'antipyretic drugs' named entity 'alleles' named entity 'molecular dynamics'

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